
#######################################################
#                                                     #
#                        LGA                          #
#                  ---------------                    #
#                                                     #
#               Local-Global Alignment                #
#        A Method for Finding 3-D Similarities        #
#               in Protein Structures                 #
#                                                     #
#                  --------------- 06/2006            #
#                                                     #
#      Adam Zemla (adamz@llnl.gov)                    #
#      Lawrence Livermore National Laboratory, CA     #
#                                                     #
#######################################################

# Molecule1: number of CA atoms   36 (   36),  selected   36 , name T0335TS168_2-D1
# Molecule2: number of CA atoms   36 (  584),  selected   36 , name T0335_D1.pdb
# PARAMETERS: T0335TS168_2-D1.T0335_D1.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    A       5      -       -           -
LGA    K       6      -       -           -
LGA    I       7      -       -           -
LGA    A       8      A       5          1.433
LGA    R       9      K       6          1.265
LGA    I      10      I       7          1.868
LGA    N      11      A       8          1.500
LGA    E      12      R       9          0.706
LGA    L      13      I      10          0.928
LGA    A      14      N      11          1.025
LGA    A      15      E      12          1.044
LGA    K      16      L      13          1.266
LGA    A      17      A      14          1.371
LGA    K      18      A      15          0.815
LGA    A      19      K      16          1.012
LGA    G      20      A      17          3.035
LGA    V      21      K      18          6.346
LGA    -       -      A      19           -
LGA    -       -      G      20           -
LGA    -       -      V      21           -
LGA    I      22      I      22          2.949
LGA    T      23      T      23          1.751
LGA    E      24      E      24          1.233
LGA    E      25      E      25          0.868
LGA    E      26      E      26          1.011
LGA    K      27      K      27          0.885
LGA    A      28      A      28          0.969
LGA    E      29      E      29          0.743
LGA    Q      30      Q      30          0.402
LGA    Q      31      Q      31          1.384
LGA    K      32      K      32          1.054
LGA    L      33      L      33          0.419
LGA    R      34      R      34          0.341
LGA    Q      35      Q      35          0.693
LGA    E      36      E      36          0.382
LGA    Y      37      Y      37          0.698
LGA    L      38      L      38          1.034
LGA    K      39      K      39          1.151
LGA    G      40      G      40          1.590

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)   36   36    5.0     33    1.69    66.67     86.781     1.842

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =   0.328735 * X  +  -0.523963 * Y  +   0.785746 * Z  +   5.813212
  Y_new =  -0.914200 * X  +  -0.385335 * Y  +   0.125522 * Z  +   1.642384
  Z_new =   0.237006 * X  +  -0.759592 * Y  +  -0.605680 * Z  +  -7.887681 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =  -2.243935    0.897658  [ DEG:  -128.5680     51.4320 ]
  Theta =  -0.239283   -2.902309  [ DEG:   -13.7099   -166.2901 ]
  Phi   =  -1.225606    1.915987  [ DEG:   -70.2220    109.7780 ]
 
# END of job
REMARK  ---------------------------------------------------------- 
REMARK   Citing LGA: 
REMARK   Zemla A., LGA - a Method for Finding 3D Similarities in  
REMARK   Protein Structures, Nucleic Acids Research, 2003, V. 31, 
REMARK   No. 13, pp. 3370-3374. 
REMARK  ---------------------------------------------------------- 
REMARK   Superimposed MOLECULES (1=>2)   Output: 1 molecule      
REMARK     1: T0335TS168_2-D1                               
REMARK     2: T0335_D1.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0335TS168_2-D1.T0335_D1.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:   36   36   5.0   33   1.69   66.67  86.781
REMARK  ---------------------------------------------------------- 
MOLECULE T0335TS168_2-D1
PFRMAT TS
TARGET T0335
MODEL 2
PARENT N/A
ATOM      5  CA  ALA     5       4.284 -11.381  -7.556  1.00 25.00           C
ATOM      6  CA  LYS     6       4.345  -7.620  -8.274  1.00 25.00           C
ATOM      7  CA  ILE     7       0.646  -7.724  -9.264  1.00 25.00           C
ATOM      8  CA  ALA     8      -0.191  -9.597  -6.030  1.00 25.00           C
ATOM      9  CA  ARG     9       1.737  -6.990  -3.992  1.00 25.00           C
ATOM     10  CA  ILE    10      -0.157  -4.170  -5.762  1.00 25.00           C
ATOM     11  CA  ASN    11      -3.488  -5.904  -5.013  1.00 25.00           C
ATOM     12  CA  GLU    12      -2.499  -6.269  -1.332  1.00 25.00           C
ATOM     13  CA  LEU    13      -1.573  -2.556  -1.187  1.00 25.00           C
ATOM     14  CA  ALA    14      -4.944  -1.628  -2.747  1.00 25.00           C
ATOM     15  CA  ALA    15      -6.762  -3.811  -0.178  1.00 25.00           C
ATOM     16  CA  LYS    16      -4.819  -2.128   2.661  1.00 25.00           C
ATOM     17  CA  ALA    17      -5.738   1.323   1.278  1.00 25.00           C
ATOM     18  CA  LYS    18      -9.423   0.294   1.091  1.00 25.00           C
ATOM     19  CA  ALA    19      -9.286  -0.947   4.711  1.00 25.00           C
ATOM     20  CA  GLY    20      -9.481   1.354   7.717  1.00 25.00           C
ATOM     21  CA  VAL    21      -6.841   0.138  10.156  1.00 25.00           C
ATOM     22  CA  ILE    22      -4.126   1.576   7.972  1.00 25.00           C
ATOM     23  CA  THR    23      -3.421   4.823   9.799  1.00 25.00           C
ATOM     24  CA  GLU    24       0.365   5.515  10.048  1.00 25.00           C
ATOM     25  CA  GLU    25       3.439   3.258   9.699  1.00 25.00           C
ATOM     26  CA  GLU    26       1.378   0.719   7.706  1.00 25.00           C
ATOM     27  CA  LYS    27       0.106   3.513   5.415  1.00 25.00           C
ATOM     28  CA  ALA    28       3.695   4.736   4.873  1.00 25.00           C
ATOM     29  CA  GLU    29       4.807   1.172   4.021  1.00 25.00           C
ATOM     30  CA  GLN    30       1.919   0.841   1.527  1.00 25.00           C
ATOM     31  CA  GLN    31       2.896   4.174  -0.085  1.00 25.00           C
ATOM     32  CA  LYS    32       6.531   3.002  -0.363  1.00 25.00           C
ATOM     33  CA  LEU    33       5.378  -0.271  -1.985  1.00 25.00           C
ATOM     34  CA  ARG    34       3.230   1.692  -4.475  1.00 25.00           C
ATOM     35  CA  GLN    35       6.216   3.937  -5.320  1.00 25.00           C
ATOM     36  CA  GLU    36       8.413   0.849  -5.868  1.00 25.00           C
ATOM     37  CA  TYR    37       5.751  -0.669  -8.164  1.00 25.00           C
ATOM     38  CA  LEU    38       5.565   2.601 -10.150  1.00 25.00           C
ATOM     39  CA  LYS    39       9.378   2.637 -10.495  1.00 25.00           C
ATOM     40  CA  GLY    40       9.326  -0.991 -11.721  1.00 25.00           C
TER
END
